Plant Circular RNA Database

Detail information of CH399085.1_circ_ig.4

			
						 General Information
					
						CircRNA Name
						CH399085.1_circ_ig.4
					
						ID in PlantcircBase
						osi_circ_001628
					
						Alias
						NA
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chrCH399085.1: 5294-5982  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						DCC
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							CH399085.1_circ_ig.1 CH399085.1_circ_ig.2 CH399085.1_circ_ig.3 CH399085.1_circ_ig.5 CH399085.1_circ_ig.6 CH399085.1_circ_ig.7 CH399085.1_circ_ig.8 CH399085.1_circ_ig.9 CH399085.1_circ_ig.10 CH399085.1_circ_ig.11 CH399085.1_circ_ig.12 CH399085.1_circ_ig.13 CH399085.1_circ_ig.14 CH399085.1_circ_ig.15 CH399085.1_circ_ig.16 CH399085.1_circ_ig.17 CH399085.1_circ_ig.18 CH399085.1_circ_ig.19 CH399085.1_circ_ig.20 CH399085.1_circ_ig.21 CH399085.1_circ_ig.22 CH399085.1_circ_ig.23 CH399085.1_circ_ig.24 CH399085.1_circ_ig.25 CH399085.1_circ_ig.26 CH399085.1_circ_ig.27 CH399085.1_circ_ig.28 CH399085.1_circ_ig.29 CH399085.1_circ_ig.30 CH399085.1_circ_ig.31 CH399085.1_circ_ig.32 CH399085.1_circ_ig.33 CH399085.1_circ_ig.34 CH399085.1_circ_ig.35 CH399085.1_circ_ig.36 CH399085.1_circ_ig.37 CH399085.1_circ_ig.38 CH399085.1_circ_ig.39 CH399085.1_circ_ig.40 CH399085.1_circ_ig.41 CH399085.1_circ_ig.42 CH399085.1_circ_ig.43 CH399085.1_circ_ig.44 CH399085.1_circ_ig.45 CH399085.1_circ_ig.46 CH399085.1_circ_ig.47 CH399085.1_circ_ig.48 CH399085.1_circ_ig.49 CH399085.1_circ_ig.50 CH399085.1_circ_ig.51 CH399085.1_circ_ig.52 CH399085.1_circ_ig.53 CH399085.1_circ_ig.54 CH399085.1_circ_ig.55 CH399085.1_circ_ig.56 CH399085.1_circ_ig.57 CH399085.1_circ_ig.58 CH399085.1_circ_ig.59 CH399085.1_circ_ig.60 CH399085.1_circ_ig.61 CH399085.1_circ_ig.62 CH399085.1_circ_ig.63 CH399085.1_circ_ig.64 CH399085.1_circ_ig.65 CH399085.1_circ_ig.66 CH399085.1_circ_ig.67 CH399085.1_circ_ig.68 CH399085.1_circ_ig.69 CH399085.1_circ_ig.70 CH399085.1_circ_ig.71 CH399085.1_circ_ig.72 CH399085.1_circ_ig.73 CH399085.1_circ_ig.74 CH399085.1_circ_ig.75 CH399085.1_circ_ig.76 CH399085.1_circ_ig.77 CH399085.1_circ_ig.78 CH399085.1_circ_ig.79 CH399085.1_circ_ig.80 CH399085.1_circ_ig.81 CH399085.1_circ_ig.82 CH399085.1_circ_ig.83 CH399085.1_circ_ig.84 CH399085.1_circ_ig.85 CH399085.1_circ_ig.86 CH399085.1_circ_ig.87 CH399085.1_circ_ig.88 CH399085.1_circ_ig.89 CH399085.1_circ_ig.90 CH399085.1_circ_ig.91 CH399085.1_circ_ig.92 CH399085.1_circ_ig.93 CH399085.1_circ_ig.94 CH399085.1_circ_ig.95 CH399085.1_circ_ig.96 CH399085.1_circ_ig.97 CH399085.1_circ_ig.98 CH399085.1_circ_ig.99 CH399085.1_circ_ig.100 CH399085.1_circ_ig.101 CH399085.1_circ_ig.102 CH399085.1_circ_ig.103 CH399085.1_circ_ig.104 CH399085.1_circ_ig.105 CH399085.1_circ_ig.106 CH399085.1_circ_ig.107 CH399085.1_circ_ig.108 CH399085.1_circ_ig.109 CH399085.1_circ_ig.110 CH399085.1_circ_ig.111 CH399085.1_circ_ig.112 CH399085.1_circ_ig.113 CH399085.1_circ_ig.114 CH399085.1_circ_ig.115 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						Exon boundary  
						
							NA-NA							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							AG-CA							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						NA

General Information
CircRNA Name	CH399085.1_circ_ig.4
ID in PlantcircBase	osi_circ_001628
Alias	NA
Organism	Oryza sativa ssp. indica
Position	chrCH399085.1: 5294-5982 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	ig-circRNA
Identification method	DCC
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	CH399085.1_circ_ig.1 CH399085.1_circ_ig.2 CH399085.1_circ_ig.3 CH399085.1_circ_ig.5 CH399085.1_circ_ig.6 CH399085.1_circ_ig.7 CH399085.1_circ_ig.8 CH399085.1_circ_ig.9 CH399085.1_circ_ig.10 CH399085.1_circ_ig.11 CH399085.1_circ_ig.12 CH399085.1_circ_ig.13 CH399085.1_circ_ig.14 CH399085.1_circ_ig.15 CH399085.1_circ_ig.16 CH399085.1_circ_ig.17 CH399085.1_circ_ig.18 CH399085.1_circ_ig.19 CH399085.1_circ_ig.20 CH399085.1_circ_ig.21 CH399085.1_circ_ig.22 CH399085.1_circ_ig.23 CH399085.1_circ_ig.24 CH399085.1_circ_ig.25 CH399085.1_circ_ig.26 CH399085.1_circ_ig.27 CH399085.1_circ_ig.28 CH399085.1_circ_ig.29 CH399085.1_circ_ig.30 CH399085.1_circ_ig.31 CH399085.1_circ_ig.32 CH399085.1_circ_ig.33 CH399085.1_circ_ig.34 CH399085.1_circ_ig.35 CH399085.1_circ_ig.36 CH399085.1_circ_ig.37 CH399085.1_circ_ig.38 CH399085.1_circ_ig.39 CH399085.1_circ_ig.40 CH399085.1_circ_ig.41 CH399085.1_circ_ig.42 CH399085.1_circ_ig.43 CH399085.1_circ_ig.44 CH399085.1_circ_ig.45 CH399085.1_circ_ig.46 CH399085.1_circ_ig.47 CH399085.1_circ_ig.48 CH399085.1_circ_ig.49 CH399085.1_circ_ig.50 CH399085.1_circ_ig.51 CH399085.1_circ_ig.52 CH399085.1_circ_ig.53 CH399085.1_circ_ig.54 CH399085.1_circ_ig.55 CH399085.1_circ_ig.56 CH399085.1_circ_ig.57 CH399085.1_circ_ig.58 CH399085.1_circ_ig.59 CH399085.1_circ_ig.60 CH399085.1_circ_ig.61 CH399085.1_circ_ig.62 CH399085.1_circ_ig.63 CH399085.1_circ_ig.64 CH399085.1_circ_ig.65 CH399085.1_circ_ig.66 CH399085.1_circ_ig.67 CH399085.1_circ_ig.68 CH399085.1_circ_ig.69 CH399085.1_circ_ig.70 CH399085.1_circ_ig.71 CH399085.1_circ_ig.72 CH399085.1_circ_ig.73 CH399085.1_circ_ig.74 CH399085.1_circ_ig.75 CH399085.1_circ_ig.76 CH399085.1_circ_ig.77 CH399085.1_circ_ig.78 CH399085.1_circ_ig.79 CH399085.1_circ_ig.80 CH399085.1_circ_ig.81 CH399085.1_circ_ig.82 CH399085.1_circ_ig.83 CH399085.1_circ_ig.84 CH399085.1_circ_ig.85 CH399085.1_circ_ig.86 CH399085.1_circ_ig.87 CH399085.1_circ_ig.88 CH399085.1_circ_ig.89 CH399085.1_circ_ig.90 CH399085.1_circ_ig.91 CH399085.1_circ_ig.92 CH399085.1_circ_ig.93 CH399085.1_circ_ig.94 CH399085.1_circ_ig.95 CH399085.1_circ_ig.96 CH399085.1_circ_ig.97 CH399085.1_circ_ig.98 CH399085.1_circ_ig.99 CH399085.1_circ_ig.100 CH399085.1_circ_ig.101 CH399085.1_circ_ig.102 CH399085.1_circ_ig.103 CH399085.1_circ_ig.104 CH399085.1_circ_ig.105 CH399085.1_circ_ig.106 CH399085.1_circ_ig.107 CH399085.1_circ_ig.108 CH399085.1_circ_ig.109 CH399085.1_circ_ig.110 CH399085.1_circ_ig.111 CH399085.1_circ_ig.112 CH399085.1_circ_ig.113 CH399085.1_circ_ig.114 CH399085.1_circ_ig.115
Support reads	NA
Tissues	leaf
Exon boundary	NA-NA "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	AG-CA The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	NA

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
						 Sequences
					
						Splice junction sequence  
						
							ATATGCAACAGCAATCCAAGGACGCATACCCAGACGGAAACTCAGTTCCCACTCACGACCCATA
TAACAAGCTACACCAAGTAAGAAGTGTAGAACAATTgctaggtctagagggaagttgtgagcat
tacgttcgtgcattacttccataccaagattagcacggttgatgatatcagcccaagtattaat
aacgcgac

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

						Full-length trsnacripts
						
							NA						
					
						Genomic sequence
						
							GCTAGGTCTAGAGGGAAGTTGTGAGCATTACGTTCGTGCATTACTTCCATACCAAGATTAGCAC
GGTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGGCTATCAACTACAGATTGGTTGAA
ATTGAATCCGTTTAGATTGAAAGCCATAGTACTAATACCTAAAGCAGTGAACCAAATCCCTACT
ACAGGCCAAGCAGCCAAGAAGAAGTGTAAAGAACGAGAGTTGTTAAAACTAGCATATTGGAAGA
TTAATCGGCCAAAATAACCATGAGCGGCCACAATATTATAAGTCTCTTCCTCTTGACCAAATCT
GTAACCCTCATTAGCAGATTCGTTTTCAGTGGTTTCCTGATCAAACTAGAGGTTACCAAGGAAC
CATGCATAGCACTGAATAGGGAACCGCCGAATACACCAGCTACACCTAACATGTGAAATGGATG
CATAAGGATGTTATGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAA
GGCATACCATCAGAGAAACTTCCTTGACCAATAGGGTAAATCAAGAAAACAGCAGTAGCAGCTG
CAACAGGAGCTGAATATGCAACAGCAATCCAAGGACGCATACCCAGACGGAAACTCAGTTCCCA
CTCACGACCCATATAACAAGCTACACCAAGTAAGAAGTGTAGAACAATT

Sequences
Splice junction sequence	ATATGCAACAGCAATCCAAGGACGCATACCCAGACGGAAACTCAGTTCCCACTCACGACCCATA TAACAAGCTACACCAAGTAAGAAGTGTAGAACAATTgctaggtctagagggaagttgtgagcat tacgttcgtgcattacttccataccaagattagcacggttgatgatatcagcccaagtattaat aacgcgac
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	GCTAGGTCTAGAGGGAAGTTGTGAGCATTACGTTCGTGCATTACTTCCATACCAAGATTAGCAC GGTTGATGATATCAGCCCAAGTATTAATAACGCGACCTTGGCTATCAACTACAGATTGGTTGAA ATTGAATCCGTTTAGATTGAAAGCCATAGTACTAATACCTAAAGCAGTGAACCAAATCCCTACT ACAGGCCAAGCAGCCAAGAAGAAGTGTAAAGAACGAGAGTTGTTAAAACTAGCATATTGGAAGA TTAATCGGCCAAAATAACCATGAGCGGCCACAATATTATAAGTCTCTTCCTCTTGACCAAATCT GTAACCCTCATTAGCAGATTCGTTTTCAGTGGTTTCCTGATCAAACTAGAGGTTACCAAGGAAC CATGCATAGCACTGAATAGGGAACCGCCGAATACACCAGCTACACCTAACATGTGAAATGGATG CATAAGGATGTTATGCTCTGCCTGGAATACAATCATAAAGTTGAAAGTACCAGATATTCCTAAA GGCATACCATCAGAGAAACTTCCTTGACCAATAGGGTAAATCAAGAAAACAGCAGTAGCAGCTG CAACAGGAGCTGAATATGCAACAGCAATCCAAGGACGCATACCCAGACGGAAACTCAGTTCCCA CTCACGACCCATATAACAAGCTACACCAAGTAAGAAGTGTAGAACAATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							ath_circ_046754 ath_circ_046709 ath_circ_046708 ath_circ_046710 
ath_circ_046822 ath_circ_046785 ath_circ_046823 ath_circ_046786 
ath_circ_046784 ath_circ_046675 						
					
						PMCS

Conservation Information
Conserved circRNAs	ath_circ_046754 ath_circ_046709 ath_circ_046708 ath_circ_046710 ath_circ_046822 ath_circ_046785 ath_circ_046823 ath_circ_046786 ath_circ_046784 ath_circ_046675
PMCS

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Guria et al., 2019

circRNA

Detail information of CH399085.1_circ_ig.4

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